List of changes in-between ODTbrain releases.

version 0.4.2

  • build: migrate to GitHub Actions

  • build: test is deprecated

  • docs: refurbish docs

  • ref: change instances of to int due to numpy deprecation warnings

version 0.4.1

  • setup: bump scipy to 1.4.0 (updated QHull in griddata)

version 0.4.0


    • renamed submodule _preproc to _prepare_sino

    • renamed submodule _postproc to _translate_ri

    • missing apple core correction is now applied to the object function (f) instead of the refractive index (n), which is the physically correct approach

    • default keyword for padval is now “edge” instead of None; the meaning is retained

  • enh: added symmetric histogram apple core correction method “sh”

  • fix: using “float32” dtype in 3D backpropagation lead to casting error in numexpr

  • enh: improve performance when padding is disabled

  • docs: minor update

version 0.3.0

  • feat: basic missing apple core correction (#6)

  • docs: reordered 3D examples (decreasing importance)

version 0.2.6

  • fix: make phase unwrapping deterministic

  • tests: remove one test of the 2D Fourier mapping algorithm due to instabilities in using scipy.interpolate.griddata

  • ref: use empty_aligned instead of deprecated n_byte_align_empty

  • docs: add hint for windows users how to run the 3D examples

version 0.2.5

  • fix: reconstruction volume rotated by 180° due to floating point inaccuracies (affects backpropagate_3d_tilted).

version 0.2.4

  • maintenance release

version 0.2.3

  • enh: employ slice-wise padding to reduce the memory usage (and possibly the computation time) of

    • basic 3D backpropagation algorithm (#7)

    • 3D backpropagation with a tilted axis of rotation (#9)

  • ref: replace asserts with raises (#8)

  • ref: multiprocessing-based rotation does not anymore require a variable (_shared_array) at the top level of the module; As a result, multiprocessing-rotation should now also work on Windows.

version 0.2.2

  • docs: minor update and add changelog

version 0.2.1

  • fix: Allow sinogram data type other than complex128

  • docs: Add example with experimental data (#3)

  • ci: automated deployment with travis-ci

version 0.2.0


    • Dropped support for Python 2

    • Renamed sum_2d to integrate_2d

  • Refactoring (#4, #5):

    • Moved each reconstruction algorithm to a separate file

    • Modified code to comply with PEP8

    • Moved long doc strings from source to docs directory

    • Migrate from unwrap to scikit-image

    • Cleaned up example scripts

  • Bugfixes:

    • Mistake in “negative-modulo” method for determination of 2PI sinogram phase offsets

version 0.1.8

  • Updated documentation

  • Cleaned up examples

version 0.1.7

  • Move documentation from GitHub to

  • Add universal wheel on PyPI

  • Update tests on travis with new versions of NumPy

version 0.1.6

  • Bugfixes:

  • size of reconstruction volume in z too large for cases where the y-size is larger than the x-size of the sinogram images

  • backpropagate_3d_tilted used wrong shape of projections

  • 3D backpropagation methods did not use power-of-two padding size

version 0.1.5

  • Code optimization (speed, memory) with numexpr

  • New keyword argument save_memory for 3D reconstruction on machines with limited memory

  • New keyword argument copy for 3D reconstruction to protect input sinogram data.

version 0.1.4

  • The exponential term containing the distance between center of rotation and detector lD is now multiplied with the factor M-1 instead of M. This is necessary, because usually the scattered wave is normalized in both amplitude and phase (u_0) and not only amplitude a_0

  • Allow angles of shape (A,1) in backpropagate_3d_tilted

  • Set default value lD=0 for all reconstruction algorithms

  • Improvement of documentation

version 0.1.3

  • Fixes for backpropagate_3d_tilted when angles are points on the unit sphere:

    • Make sure each point is normalized

    • Correctly rotate each point w.r.t. tilted_axis

version 0.1.2

  • Added reconstruction algorithm for tilted axis of rotation

version 0.1.1

  • Support NumPy 1.10.

  • Allow to weight backpropagation using keyword weight_angles

  • Bugfix: backpropagate_3d with keyword onlyreal=True did not work

  • Bugfix: sum_2d did not return correctly shaped array

  • Code coverage is now 90%

  • Added more examples to the documentation